Locus 1878

Sequence ID 2R_DroMel_CAF1
Location 7,066,063 – 7,066,169
Length 106
Max. P 0.961354
window3110 window3111

overview

Window 0

Location 7,066,063 – 7,066,169
Length 106
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 79.26
Mean single sequence MFE -33.13
Consensus MFE -19.91
Energy contribution -21.47
Covariance contribution 1.56
Combinations/Pair 1.03
Mean z-score -2.63
Structure conservation index 0.60
SVM decision value 1.53
SVM RNA-class probability 0.961354
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7066063 106 + 20766785
CAUCGGUUGUUGUCCGUUGUUAUUGUUGUUUCUGGUCGUCGGAUGUCGGACGUUGGACGUUGGACGUUGGACGUUGGACGUUGGACA-CUGGACAUUGGACGUUGGU
...........(((((.((...........((..((.(((.((((((.((((((.((((.....)))).)))))).)))))).))))-)..)))).)))))...... ( -40.30)
>DroEre_CAF1 97099 85 + 1
CAGCGGUUGUUGUCCGUUGUUAUUGUUGUUUCUGGUCGUCGGAUGUCGGACGUUGGAC---------------------GCUGGACA-UUGGACAGUGGACGCUGGU
(((((.(..(((((((.((((......((.((..(.((((.(....).)))))..)).---------------------))..))))-.)))))))..).))))).. ( -35.70)
>DroYak_CAF1 98087 85 + 1
CAUCGGUUGUUGUCCGUUGUUAUUGUUGUUUCUGGUCGUCGGAUGUUGGACACUGGAC---------------------GUUGGACAU-UGGACACUGGACGUUGGU
((.(((.......))).))...........((..((.(((.((((((.(((.......---------------------))).)))))-).)))))..))....... ( -23.40)
>consensus
CAUCGGUUGUUGUCCGUUGUUAUUGUUGUUUCUGGUCGUCGGAUGUCGGACGUUGGAC_____________________GUUGGACA__UGGACACUGGACGUUGGU
...........(((((.((((..((((...((..(.((((.(....).)))))..))(((((((((.....)))))))))...))))....)))).)))))...... (-19.91 = -21.47 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 7,066,063 – 7,066,169
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 79.26
Mean single sequence MFE -18.37
Consensus MFE -10.52
Energy contribution -10.30
Covariance contribution -0.22
Combinations/Pair 1.09
Mean z-score -2.30
Structure conservation index 0.57
SVM decision value 0.53
SVM RNA-class probability 0.772065
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7066063 106 - 20766785
ACCAACGUCCAAUGUCCAG-UGUCCAACGUCCAACGUCCAACGUCCAACGUCCAACGUCCGACAUCCGACGACCAGAAACAACAAUAACAACGGACAACAACCGAUG
......((((..((((..(-((((..((((...((((..........))))...))))..)))))..))))....(......).........))))........... ( -19.90)
>DroEre_CAF1 97099 85 - 1
ACCAGCGUCCACUGUCCAA-UGUCCAGC---------------------GUCCAACGUCCGACAUCCGACGACCAGAAACAACAAUAACAACGGACAACAACCGCUG
..(((((.....(((((.(-((((..((---------------------(.....)))..)))))....(.....)................))))).....))))) ( -19.80)
>DroYak_CAF1 98087 85 - 1
ACCAACGUCCAGUGUCCA-AUGUCCAAC---------------------GUCCAGUGUCCAACAUCCGACGACCAGAAACAACAAUAACAACGGACAACAACCGAUG
.....((((...(((...-.(((((..(---------------------(((..(((.....)))..))))....(......).........))))))))...)))) ( -15.40)
>consensus
ACCAACGUCCAAUGUCCA__UGUCCAAC_____________________GUCCAACGUCCGACAUCCGACGACCAGAAACAACAAUAACAACGGACAACAACCGAUG
......((((..((..(....)..)).............................((((........)))).....................))))........... (-10.52 = -10.30 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:21 2006